sp. nov., isolated from Nukadoko, rice bran paste for Japanese pickles Free

Abstract

Two strains of lactic acid bacteria, Nu27 and Nu29, were isolated from Nukadoko, rice bran paste for Japanese pickles. The isolates were Gram-stain-positive, rod-shaped, catalase-negative, non-motile and facultatively anaerobic lactic acid bacteria. The isolates showed identical 16S rRNA gene sequences. The closest relatives to strain Nu27 based on 16S rRNA gene sequence similarities were KU-3 (98.9 % 16S rRNA gene sequence similarity), iz4b (96.3 %) and CECT 5290 (97.2 %). DNA–DNA relatedness values revealed genotype separation of the two isolates from the above three species. Based on the physiological, biochemical and genotypic characteristics provided, the isolates represent a novel species of the genus , for which name is proposed. The type strain is Nu 27 ( = JCM 18764 = NRIC 0900 = DSM 27174).

Funding
This study was supported by the:
  • Japan Science and Technology Agency (JST)/Japan International Cooperation Agency (JICA)
  • Science and Technology Research Partnership for Sustainable Development (SATREPS)
Loading

Article metrics loading...

/content/journal/ijsem/10.1099/ijs.0.063933-0
2014-08-01
2024-03-29
Loading full text...

Full text loading...

/deliver/fulltext/ijsem/64/8/2902.html?itemId=/content/journal/ijsem/10.1099/ijs.0.063933-0&mimeType=html&fmt=ahah

References

  1. Chenoll E., Macián M. C., Aznar R. ( 2006 ). Lactobacillus tucceti sp. nov., a new lactic acid bacterium isolated from sausage. . Syst Appl Microbiol 29, 389395. [View Article] [PubMed]
    [Google Scholar]
  2. Darriba D., Taboada G. L., Doallo R., Posada D. ( 2012 ). jModelTest 2: more models, new heuristics and parallel computing. . Nat Methods 9, 772. [View Article] [PubMed]
    [Google Scholar]
  3. Endo A., Okada S. ( 2006 ). Oenococcus kitaharae sp. nov., a non-acidophilic and non-malolactic-fermenting oenococcus isolated from a composting distilled shochu residue. . Int J Syst Evol Microbiol 56, 23452348. [View Article] [PubMed]
    [Google Scholar]
  4. Ezaki T., Hashimoto Y., Yabuuchi E. ( 1989 ). Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. . Int J Syst Bacteriol 39, 224229. [View Article]
    [Google Scholar]
  5. Felsenstein J. ( 1985 ). Confidence limits on phylogenies: an approach using the bootstrap. . Evolution 39, 783791. [View Article]
    [Google Scholar]
  6. Guindon S., Gascuel O. ( 2003 ). A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. . Syst Biol 52, 696704. [View Article] [PubMed]
    [Google Scholar]
  7. Irisawa T., Okada S. ( 2009 ). Lactobacillus sucicola sp. nov., a motile lactic acid bacterium isolated from oak tree (Quercus sp.) sap. . Int J Syst Evol Microbiol 59, 26622665. [View Article] [PubMed]
    [Google Scholar]
  8. Kashiwagi T., Suzuki T., Kamakura T. ( 2009 ). Lactobacillus nodensis sp. nov., isolated from rice bran. . Int J Syst Evol Microbiol 59, 8386. [View Article] [PubMed]
    [Google Scholar]
  9. Kimura M. ( 1980 ). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. . J Mol Evol 16, 111120. [View Article] [PubMed]
    [Google Scholar]
  10. Kitahara M., Takamine F., Imamura T., Benno Y. ( 2001 ). Clostridium hiranonis sp. nov., a human intestinal bacterium with bile acid 7α-dehydroxylating activity. . Int J Syst Evol Microbiol 51, 3944.[PubMed]
    [Google Scholar]
  11. Komagata K., Suzuki K. ( 1987 ). Lipid and cell-wall analysis in bacterial systematics. . Methods Microbiol 19, 161207. [View Article]
    [Google Scholar]
  12. Larkin M. A., Blackshields G., Brown N. P., Chenna R., McGettigan P. A., McWilliam H., Valentin F., Wallace I. M., Wilm A. & other authors ( 2007 ). Clustal W and Clustal X version 2.0. . Bioinformatics 23, 29472948. [View Article] [PubMed]
    [Google Scholar]
  13. Manome A., Okada S., Uchimura T., Komagata K. ( 1998 ). The ratio of l-form to d-form of lactic acid as a criteria for the identification of lactic acid bacteria. . J Gen Appl Microbiol 44, 371374. [View Article] [PubMed]
    [Google Scholar]
  14. Nakayama J., Hoshiko H., Fukuda M., Tanaka H., Sakamoto N., Tanaka S., Ohue K., Sakai K., Sonomoto K. ( 2007 ). Molecular monitoring of bacterial community structure in long-aged nukadoko: pickling bed of fermented rice bran dominated by slow-growing lactobacilli. . J Biosci Bioeng 104, 481489. [View Article] [PubMed]
    [Google Scholar]
  15. Naser S. M., Thompson F. L., Hoste B., Gevers D., Dawyndt P., Vancanneyt M., Swings J. ( 2005 ). Application of multilocus sequence analysis (MLSA) for rapid identification of Enterococcus species based on rpoA and pheS genes. . Microbiology 151, 21412150. [View Article] [PubMed]
    [Google Scholar]
  16. Naser S. M., Dawyndt P., Hoste B., Gevers D., Vandemeulebroecke K., Cleenwerck I., Vancanneyt M., Swings J. ( 2007 ). Identification of lactobacilli by pheS and rpoA gene sequence analyses. . Int J Syst Evol Microbiol 57, 27772789. [View Article] [PubMed]
    [Google Scholar]
  17. Okada S., Hosoi Y., Takahashi M., Kozaki M. ( 1991 ). A rapid method for the determination of the fermentation types, homo- and hetero-fermentation, of lactic acid bacteria. . Bull JFCC 7, 610. (in Japanese).
    [Google Scholar]
  18. Saitou N., Nei M. ( 1987 ). The neighbor-joining method: a new method for reconstructing phylogenetic trees. . Mol Biol Evol 4, 406425.[PubMed]
    [Google Scholar]
  19. Sakamoto M., Ohkuma M. ( 2013 ). Bacteroides reticulotermitis sp. nov., isolated from the gut of a subterranean termite (Reticulitermes speratus). . Int J Syst Evol Microbiol 63, 691695. [View Article] [PubMed]
    [Google Scholar]
  20. Sakamoto N., Tanaka S., Sonomoto K., Nakayama J. ( 2011 ). 16S rRNA pyrosequencing-based investigation of the bacterial community in nukadoko, a pickling bed of fermented rice bran. . Int J Food Microbiol 144, 352359. [View Article] [PubMed]
    [Google Scholar]
  21. Tamaoka J., Komagata K. ( 1984 ). Determination of DNA base composition by reversed-phase high-performance liquid chromatography. . FEMS Microbiol Lett 25, 125128. [View Article]
    [Google Scholar]
  22. Tohno M., Kitahara M., Irisawa T., Inoue H., Uegaki R., Ohkuma M., Tajima K. ( 2013 ). Lactobacillus oryzae sp. nov., isolated from fermented rice grain (Oryza sativa L. subsp. japonica). . Int J Syst Evol Microbiol 63, 29572962. [View Article] [PubMed]
    [Google Scholar]
http://instance.metastore.ingenta.com/content/journal/ijsem/10.1099/ijs.0.063933-0
Loading
/content/journal/ijsem/10.1099/ijs.0.063933-0
Loading

Data & Media loading...

Supplements

Supplementary material 1

PDF

Most cited Most Cited RSS feed